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bioRxiv · 10.1101/2024.07.16.603769

Polymer physics models reveal structural folding features of single-molecule gene chromatin conformations

Conte, M.·Abraham, A.·Esposito, A.·Yang, L.·Gibcus, J. H.·Parsi, K. M.·Vercellone, F.·Fontana, A.·Di Pierno, F.·Dekker, J.·Nicodemi, M.
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Abstract

Here, we employ polymer physics models of chromatin to investigate the 3D folding of a 2Mb wide genomic region encompassing the human LTN1 gene, a crucial DNA locus involved in key cellular functions. Through extensive Molecular Dynamics simulations, we reconstruct in-silico the ensemble of single-molecule LTN1 3D structures, which we benchmark against recent in-situ Hi-C 2.0 data. The model-derived single molecules are then used to predict structural folding features at the single-cell level, providing testable predictions for super-resolution microscopy experiments.

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Conte, M., Abraham, A., Esposito, A., Yang, L., Gibcus, J. H., Parsi, K. M., Vercellone, F., Fontana, A., Di Pierno, F., Dekker, J., Nicodemi, M.. 2024-07-16. Polymer physics models reveal structural folding features of single-molecule gene chromatin conformations. https://doi.org/10.1101/2024.07.16.603769

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